This file was created with JabRef 2.0.1.
Encoding: Cp1252

@ARTICLE{Bagwell2004,
  author = {C. Bruce Bagwell},
  title = {{DNA} histogram analysis for node-negative breast cancer.},
  journal = {Cytometry A},
  year = {2004},
  volume = {58},
  pages = {76--78},
}

@ARTICLE{Boguski2003,
  author = {Mark S Boguski and Martin W McIntosh},
  title = {{B}iomedical informatics for proteomics.},
  journal = {Nature},
  year = {2003},
  volume = {422},
  pages = {233--237},
}

@ARTICLE{Braylan2004,
  author = {Raul C Braylan},
  title = {{I}mpact of flow cytometry on the diagnosis and characterization
	of lymphomas, chronic lymphoproliferative disorders and plasma cell
	neoplasias.},
  journal = {Cytometry A},
  year = {2004},
  volume = {58},
  pages = {57--61},
}

@ARTICLE{Brazma2001,
  author = {A. Brazma},
  title = {{O}n the importance of standardisation in life sciences.},
  journal = {Bioinformatics},
  year = {2001},
  volume = {17},
  pages = {113--114},
}

@ARTICLE{Carr1987,
  author = {D.B. Carr and R. Littlefield and  W.Nicholson and  J.S. Littlefield},
  title = {{S}catterplot matrix techniques for large N.},
  journal = {Journal of the American Statistical Association},
  year = {1987},
  volume = {82},
  pages = {424--436},
}

@ARTICLE{Chicurel2002,
  author = {M. Chicurel},
  title = {{B}ioinformatics: bringing it all together.},
  journal = {Nature},
  year = {2002},
  volume = {419},
  pages = {751--755},
}

@BOOK{Conover1971,
 author = {W. J. Conover},
 title ={{P}ractical Nonparametric Statistics},
 publisher = {John Wiley and Sons.},
 year={1971},
 address ={New York},
 }

@ARTICLE{Edwards1989,
  author = {B.S Edwards and K.K. Altobelli and H.A. Nolla and D.A. Harper and R.R. Hoffman},
  title = {{c}omprehensive quality assessment approach for flow cytometric immunophenotyping of human lymphocytes.},
  journal = {Cytometry},
  year = {1989},
  volume = {10},
  pages = {433--441},
  number = {4},
  month = {jul},
  
}


@ARTICLE{Edwards2004,
  author = {B.S Edwards and T. Oprea and E.R Prossnitz and L.A Sklar},
  title = {{F}low cytometry for high-throughput, high-content screening.},
  journal = {Curr Opin Chem Biol},
  year = {2004},
  volume = {8},
  pages = {392--398},
  number = {4},
  month = {Aug},
  
}
@ARTICLE{Gasparetto2004,
  author = {Maura Gasparetto and Tracy Gentry and Said Sebti and Erica O'Bryan
	and Ramadevi Nimmanapalli and Michelle A Blaskovich and Kapil Bhalla
	and David Rizzieri and Perry Haaland and Jack Dunne and Clay Smith},
  title = {{I}dentification of compounds that enhance the anti-lymphoma activity
	of rituximab using flow cytometric high-content screening.},
  journal = {J Immunol Methods},
  year = {2004},
  volume = {292},
  pages = {59--71},
}

@ARTICLE{Gratama1998,
  author = {J. W. Gratama and J. L. D'hautcourt and F. Mandy and G. Rothe and
	D. Barnett and G. Janossy and S. Papa and G. Schmitz and R. Lenkei},
  title = {{F}low cytometric quantitation of immunofluorescence intensity: problems
	and perspectives. {E}uropean {W}orking {G}roup on {C}linical {C}ell
	{A}nalysis.},
  journal = {Cytometry},
  year = {1998},
  volume = {33},
  pages = {166--178},
}
 
@ARTICLE{Grubbs1950,
  author = {F.E. Grubbs}, 
  year = {1950},
  title = {{S}ample Criteria for testing outlying observations.},
  journal = {Ann. Math. Stat.},
  volume = {21},
  number = {1}, 
  pages = {27--58},
}

@ARTICLE{Herzenberg2006,
  author = {L.A.  Herzenberg and J. Tung and W.A. Moore, L.A. Herzenberg and D. R. Parks},
  title = {{I}nterpreting flow Cytometry data: a guide for the perplexed.},
  journal = {Nature Immunology},
  year = {2006},
  volume = {7},
  pages = {681--685},
}

@ARTICLE{Keeney2004,
  author = {M. Keeney and D. Barnett and J. W. Gratama},
  title = {{I}mpact of standardization on clinical cell analysis by flow cytometry.},
  journal = {J Biol Regul Homeost Agents},
  year = {2004},
  volume = {18},
  pages = {305--312},
}

@ARTICLE{Kuckuck2001,
  author = {F. W. Kuckuck and B. S. Edwards and L. A. Sklar},
  title = {{H}igh throughput flow cytometry.},
  journal = {Cytometry},
  year = {2001},
  volume = {44},
  pages = {83--90},
}
@ARTICLE{LeMeur2006,
  author = {N. LeMeur and F. Hahne},
  title = {{A}nalyzing Flow Cytometry Data with Bioconductor.},
  journal = {Rnews},
  year = {2006},
  volume = {6},
  pages = {27--32},
}

@ARTICLE{LeMeur2007,
  author = {N. LeMeur and A. Rossini and M. Gasparetto and C. Smith and R.R. Brinkman and R. Gentleman},
  title = {{D}ata Quality Assessment of Ungated Flow Cytometry Data in High Throughput Experiments.},
  journal = {Cytometry},
  year = {2007},
  volume = {Epub ahead of print},
  pages = {},
}

@BOOK{Parks1997,
  title = {Data Processing and Analysis: Data Management.},
  publisher = {John Wiley \& Sons, Inc},
  year = {1997},
  editor = {JP Robinson , Z Darkzynkiewicz, PN Dean},
  author = {DR Parks},
  volume = {1},
  series = {Current Protocols in Cytometry},
  address = {New York},
}

@MANUAL{R2005,
  title = {R: A Language and Environment for Statistical Computing},
  author = {{R Development Core Team}},
  organization = {R Foundation for Statistical Computing},
  address = {Vienna, Austria},
  year = {2005},
 }

@ARTICLE{Roederer2001b,
  author = {M. Roederer and R. R. Hardy},
  title = {{F}requency difference gating: a multivariate method for identifying
	subsets that differ between samples.},
  journal = {Cytometry},
  year = {2001},
  volume = {45},
  pages = {56--64},
}

@ARTICLE{Roederer2001d,
  author = {M. Roederer and A. Treister and W. Moore and L. A. Herzenberg},
  title = {{P}robability binning comparison: a metric for quantitating univariate distribution differences.},
  journal = {Cytometry},
  year = {2001},
  volume = {45},
  pages = {37--46},
}


@ARTICLE{Spidlen2006,
  author = {J. Spidlen and R.C. Gentleman and P.D. Haaland and M. Langille 
and N. Le Meur N and M.F. Ochs and C. Schmitt and C.A. Smith and A.S. Treister and R.R. Brinkman},
  title = {{D}ata standards for flow cytometry},
  journal = {OMICS},
  year = {2006},
  volume = {10},
  number = {2}, 
  pages = {209--214},
}

@article{Spidlen2008,
  title =	 {Gating-ML: XML-based Gating Descriptions in Flow
                  Cytometry.},
  author =	 {Spidlen, J. and Leif, R.C. and Moore, W. and 
                  Roederer, M. and International Society for the Advancement
                  of Cytometry Data Standards Task Force and Brinkman, R.R.},
  journal =	 {Cytometry A},
  volume =	 {73A},
  number =	 {12},
  pages =	 {1151--1157},
  year =	 {2008}
}

@ARTICLE{Suni2003,
  author = {Maria A Suni and Holli S Dunn and Patricia L Orr and Rian de Laat
	and Elizabeth Sinclair and Smita A Ghanekar and Barry M Bredt and
	John F Dunne and Vernon C Maino and Holden T Maecker},
  title = {{P}erformance of plate-based cytokine flow cytometry with automated
	data analysis.},
  journal = {BMC Immunol},
  year = {2003},
  volume = {4},
  pages = {9},
}

@ARTICLE{Swayne2003,
  author = {D.F. Swayne and D. Temple Lang and A. Buja and D. Cook},
  title = {{GG}obi: {E}volving from {XG}obi into an {E}xtenxible {F}ramework
	for {I}nteractive {D}ata {V}isualization.},
  journal = {Journal of Computational Statistics and Data Analysis},
  year = {2003},
  volume = {43},
  pages = {423--444},
}

@BOOK{Tukey1977,
  author = {J. W. Tukey},
  title = {{E}xploratory Data Analysis.},
  publisher = {Reading},
  year = {1977},
  editor = {Addison-Wesley},
  address ={Mass.},  
  series = {behavioral Science - Quantitative Methods},
}


@ARTICLE{Waller2003,
  author = {A. Waller and P. Simons and E. R. Prossnitz and B. S. Edwards and
	L. A. Sklar},
  title = {{H}igh throughput screening of {G}-protein coupled receptors via
	flow cytometry.},
  journal = {Comb Chem High Throughput Screen},
  year = {2003},
  volume = {6},
  pages = {389--397},
}

@BOOK{Gentleman2005,
  title = {{B}ioinformatics and Computational Biology Solutions Using R and Bioconductor},
  publisher = {Springer},
  year = {2005},
  editor = {R. Gentleman and V. Carey and W. Huber and R. Irizarry and S. Dudoit},
  address ={New York} ,
  series = {Statistics for Biology and Health},
}

@BOOK{Finak2014,
  author = {Finak G. and Frelinger J. and Newell E.W. and Ramey J. and Davis M.M. and Kalams S.A. and De Rosa S.C. and Gottardo R.},
  title = {{O}penCyto: An Open Source Infrastructure for Scalable, Robust, Reproducible, and Automated, End-to-End Flow Cytometry Data Analysis},
  journal = {PLoS Computational Biology},
  publisher = {Public Library of Science},
  year = {2014},
  keywords = {Bioinformatics,Biology and life sciences,Computer and information sciences,Computer architecture,Computer software,Cytophotometry,Database and informatics methods,Flow cytometry,Immunology,Medicine and health sciences,Open source software,Pipelines (computing),Preventive medicine,Public and occupational health,Research Article,Research and analysis methods,Software engineering,Software pipelines,Software tools,Spectrophotometry,Spectrum analysis techniques,Vaccination and immunization,Vaccine development},
  month = {Aug},
  number = {8},
  pages = {e1003806},
  volume = {10},
}


